RnoINT0034866 @ rn6
Intron Retention
Gene
ENSRNOG00000021138 | Cers2
Description
ceramide synthase 2 [Source:RGD Symbol;Acc:1310059]
Coordinates
chr2:196493923-196494325:+
Coord C1 exon
chr2:196493923-196494015
Coord A exon
chr2:196494016-196494196
Coord C2 exon
chr2:196494197-196494325
Length
181 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
AGCCTCTATCTTTTCTGCAGGAT
3' ss Score
9.17
Exon sequences
Seq C1 exon
AGTATCATCCCTTCTCAGTATTGGTACTACATGATTGAGCTTGCTTTCTACTGGTCCCTGCTCTTCAGCATTGCCTCCGATGTCAAGCGAAAG
Seq A exon
GTGGGTAAAGAGGCTGTGCAACTAAGTCTAGGCCAGAAGAGGTCCTGGAGTGAAGAGTCTCCCCTTTGACTTCTTGGGGAGCTGGGCAGAGCTGCTGGGATGTAGGTAACAAAATCTGAGGGAGAGAAGAAGGAACAATGGAACAGGAAAGAGTCCTTTGGAGCCTCTATCTTTTCTGCAG
Seq C2 exon
GATTTTAAGGAACAGATCATCCACCATGTGGCCACCATCATTCTCCTCTGCTTCTCCTGGTTTGCCAATTATGTCCGAGCAGGGACCCTCATCATGGCTCTGCATGACTCTTCCGACTACCTGCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021138:ENSRNOT00000028699:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0379811=TRAM_LAG1_CLN8=FE(15.5=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=FE(21.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCATCCCTTCTCAGTATTGGTACT
R:
CTCCAGCAGGTAGTCGGAAGA
Band lengths:
218-399
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]